| 1. |
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| 2. |
- Meech, K. J., et al.
(författare)
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EPOXI: Comet 103P/Hartley 2 Observations from a Worldwide Campaign
- 2011
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Ingår i: Astrophysical Journal Letters. - London : IOP. - 2041-8213 .- 2041-8205. ; 734:L1, s. 1-9
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Tidskriftsartikel (refereegranskat)abstract
- Earth- and space-based observations provide synergistic information for space mission encounters by providing data over longer timescales, at different wavelengths and using techniques that are impossible with an in situ flyby. We report here such observations in support of the EPOXI spacecraft flyby of comet 103P/Hartley 2. The nucleus is small and dark, and exhibited a very rapidly changing rotation period. Prior to the onset of activity, the period was ~16.4?hr. Starting in 2010 August the period changed from 16.6?hr to near 19?hr in December. With respect to dust composition, most volatiles and carbon and nitrogen isotope ratios, the comet is similar to other Jupiter-family comets. What is unusual is the dominance of CO 2 -driven activity near perihelion, which likely persists out to aphelion. Near perihelion the comet nucleus was surrounded by a large halo of water-ice grains that contributed significantly to the total water production.
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| 3. |
- Forrest, ARR, et al.
(författare)
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A promoter-level mammalian expression atlas
- 2014
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Ingår i: Nature. - : Springer Science and Business Media LLC. - 1476-4687 .- 0028-0836. ; 507:7493, s. 462-
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Tidskriftsartikel (refereegranskat)
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| 4. |
- Aartsen, M. G., et al.
(författare)
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First Observation of PeV-Energy Neutrinos with IceCube
- 2013
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Ingår i: Physical Review Letters. - 0031-9007 .- 1079-7114. ; 111:2, s. 021103-
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Tidskriftsartikel (refereegranskat)abstract
- We report on the observation of two neutrino-induced events which have an estimated deposited energy in the IceCube detector of 1.04 +/- 0.16 and 1.14 +/- 0.17 PeV, respectively, the highest neutrino energies observed so far. These events are consistent with fully contained particle showers induced by neutral-current nu(e,mu,tau) ((nu) over bar (e,mu,tau)) or charged-current nu(e) ((nu) over bar (e)) interactions within the IceCube detector. The events were discovered in a search for ultrahigh energy neutrinos using data corresponding to 615.9 days effective live time. The expected number of atmospheric background is 0.082 +/- 0.004(stat)(-0.057)(+0.041)(syst). The probability of observing two or more candidate events under the atmospheric background-only hypothesis is 2.9 x 10(-3) (2.8 sigma) taking into account the uncertainty on the expected number of background events. These two events could be a first indication of an astrophysical neutrino flux; the moderate significance, however, does not permit a definitive conclusion at this time.
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| 5. |
- Aartsen, M. G., et al.
(författare)
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Measurement of the Atmospheric nu(e) Flux in IceCube
- 2013
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Ingår i: Physical Review Letters. - 0031-9007 .- 1079-7114. ; 110:15, s. 151105-
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Tidskriftsartikel (refereegranskat)abstract
- We report the first measurement of the atmospheric electron neutrino flux in the energy range between approximately 80 GeV and 6 TeV, using data recorded during the first year of operation of IceCube's DeepCore low-energy extension. Techniques to identify neutrinos interacting within the DeepCore volume and veto muons originating outside the detector are demonstrated. A sample of 1029 events is observed in 281 days of data, of which 496 +/- 66(stat) +/- 88(syst) are estimated to be cascade events, including both electron neutrino and neutral current events. The rest of the sample includes residual backgrounds due to atmospheric muons and charged current interactions of atmospheric muon neutrinos. The flux of the atmospheric electron neutrinos is consistent with models of atmospheric neutrinos in this energy range. This constitutes the first observation of electron neutrinos and neutral current interactions in a very large volume neutrino telescope optimized for the TeV energy range.
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| 6. |
- Aartsen, M. G., et al.
(författare)
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Search for Dark Matter Annihilations in the Sun with the 79-String IceCube Detector
- 2013
-
Ingår i: Physical Review Letters. - 0031-9007 .- 1079-7114. ; 110:13, s. 131302-
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Tidskriftsartikel (refereegranskat)abstract
- We have performed a search for muon neutrinos from dark matter annihilation in the center of the Sun with the 79-string configuration of the IceCube neutrino telescope. For the first time, the DeepCore subarray is included in the analysis, lowering the energy threshold and extending the search to the austral summer. The 317 days of data collected between June 2010 and May 2011 are consistent with the expected background from atmospheric muons and neutrinos. Upper limits are set on the dark matter annihilation rate, with conversions to limits on spin-dependent and spin-independent scattering cross sections of weakly interacting massive particles (WIMPs) on protons, for WIMP masses in the range 20-5000 GeV=c(2). These are the most stringent spin-dependent WIMP-proton cross section limits to date above 35 GeV=c(2) for most WIMP models.
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| 7. |
- Aartsen, M. G., et al.
(författare)
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South Pole glacial climate reconstruction from multi-borehole laser particulate stratigraphy
- 2013
-
Ingår i: Journal of Glaciology. - 0022-1430 .- 1727-5652. ; 59:218, s. 1117-1128
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Tidskriftsartikel (refereegranskat)abstract
- The IceCube Neutrino Observatory and its prototype, AMANDA, were built in South Pole ice, using powerful hot-water drills to cleanly bore >100 holes to depths up to 2500 m. The construction of these particle physics detectors provided a unique opportunity to examine the deep ice sheet using a variety of novel techniques. We made high-resolution particulate profiles with a laser dust logger in eight of the boreholes during detector commissioning between 2004 and 2010. The South Pole laser logs are among the most clearly resolved measurements of Antarctic dust strata during the last glacial period and can be used to reconstruct paleoclimate records in exceptional detail. Here we use manual and algorithmic matching to synthesize our South Pole measurements with ice-core and logging data from Dome C, East Antarctica. We derive impurity concentration, precision chronology, annual-layer thickness, local spatial variability, and identify several widespread volcanic ash depositions useful for dating. We also examine the interval around similar to 74 ka recently isolated with radiometric dating to bracket the Toba (Sumatra) supereruption.
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| 8. |
- Abbasi, R., et al.
(författare)
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IceTop : The surface component of IceCube
- 2013
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Ingår i: Nuclear Instruments and Methods in Physics Research Section A. - : Elsevier BV. - 0168-9002 .- 1872-9576. ; 700, s. 188-220
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Tidskriftsartikel (refereegranskat)abstract
- IceTop, the surface component of the IceCube Neutrino Observatory at the South Pole, is an air shower array with an area of 1 km(2). The detector allows a detailed exploration of the mass composition of primary cosmic rays in the energy range from about 100 TeV to 1 EeV by exploiting the correlation between the shower energy measured in IceTop and the energy deposited by muons in the deep ice. In this paper we report on the technical design, construction and installation, the trigger and data acquisition systems as well as the software framework for calibration, reconstruction and simulation. Finally the first experience from commissioning and operating the detector and the performance as an air shower detector will be discussed.
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| 9. |
- Aartsen, M. G., et al.
(författare)
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Measurement of Atmospheric Neutrino Oscillations with IceCube
- 2013
-
Ingår i: Physical Review Letters. - 0031-9007 .- 1079-7114. ; 111:8, s. 081801-
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Tidskriftsartikel (refereegranskat)abstract
- We present the first statistically significant detection of neutrino oscillations in the high-energy regime (> 20 GeV) from an analysis of IceCube Neutrino Observatory data collected in 2010 and 2011. This measurement is made possible by the low-energy threshold of the DeepCore detector (similar to 20 GeV) and benefits from the use of the IceCube detector as a veto against cosmic-ray-induced muon background. The oscillation signal was detected within a low-energy muon neutrino sample (20-100 GeV) extracted from data collected by DeepCore. A high-energy muon neutrino sample (100 GeV-10 TeV) was extracted from IceCube data to constrain systematic uncertainties. The disappearance of low-energy upward-going muon neutrinos was observed, and the nonoscillation hypothesis is rejected with more than 5 sigma significance. In a two-neutrino flavor formalism, our data are best described by the atmospheric neutrino oscillation parameters vertical bar Delta m(32)(2)vertical bar = (2.3(-0.5)(+0.6)) x 10(-3) eV(2) and sin(2) (2 theta(23)) > 0.93, and maximum mixing is favored.
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| 10. |
- Aartsen, M. G., et al.
(författare)
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Measurement of South Pole ice transparency with the IceCube LED calibration system
- 2013
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Ingår i: Nuclear Instruments and Methods in Physics Research Section A. - : Elsevier BV. - 0168-9002 .- 1872-9576. ; 711, s. 73-89
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Tidskriftsartikel (refereegranskat)abstract
- The IceCube Neutrino Observatory, approximately 1 km(3) in size, is now complete with 86 strings deployed in the Antarctic ice. IceCube detects the Cherenkov radiation emitted by charged particles passing through or created in the ice. To realize the full potential of the detector, the properties of light propagation in the ice in and around the detector must be well understood. This report presents a new method of fitting the model of light propagation in the ice to a data set of in situ light source events collected with IceCube. The resulting set of derived parameters, namely the measured values of scattering and absorption coefficients vs. depth, is presented and a comparison of IceCube data with simulations based on the new model is shown.
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| 11. |
- Aartsen, M. G., et al.
(författare)
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Observation of Cosmic-Ray Anisotropy with the Icetop Air Shower Array
- 2013
-
Ingår i: Astrophysical Journal. - 0004-637X .- 1538-4357. ; 765:1, s. 55-
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Tidskriftsartikel (refereegranskat)abstract
- We report on the observation of anisotropy in the arrival direction distribution of cosmic rays at PeV energies. The analysis is based on data taken between 2009 and 2012 with the IceTop air shower array at the south pole. IceTop, an integral part of the IceCube detector, is sensitive to cosmic rays between 100 TeV and 1 EeV. With the current size of the IceTop data set, searches for anisotropy at the 10(-3) level can, for the first time, be extended to PeV energies. We divide the data set into two parts with median energies of 400 TeV and 2 PeV, respectively. In the low energy band, we observe a strong deficit with an angular size of about 30 degrees and an amplitude of (-1.58 +/- 0.46(stat) +/- 0.52(sys)) x 10(-3) at a location consistent with previous observations of cosmic rays with the IceCube neutrino detector. The study of the high energy band shows that the anisotropy persists to PeV energies and increases in amplitude to (-3.11 +/- 0.38(stat) +/- 0.96(sys)) x 10(-3).
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| 12. |
- Aartsen, M. G., et al.
(författare)
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Observation of the cosmic-ray shadow of the Moon with IceCube
- 2014
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Ingår i: Physical Review D. - 1550-7998 .- 1550-2368. ; 89:10, s. 102004-
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Tidskriftsartikel (refereegranskat)abstract
- We report on the observation of a significant deficit of cosmic rays from the direction of the Moon with the IceCube detector. The study of this "Moon shadow" is used to characterize the angular resolution and absolute pointing capabilities of the detector. The detection is based on data taken in two periods before the completion of the detector: between April 2008 and May 2009, when IceCube operated in a partial configuration with 40 detector strings deployed in the South Pole ice, and between May 2009 and May 2010 when the detector operated with 59 strings. Using two independent analysis methods, the Moon shadow has been observed to high significance (> 6 sigma) in both detector configurations. The observed location of the shadow center is within 0.2 degrees of its expected position when geomagnetic deflection effects are taken into account. This measurement validates the directional reconstruction capabilities of IceCube.
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| 13. |
- Abbasi, R., et al.
(författare)
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Cosmic ray composition and energy spectrum from 1-30 PeV using the 40-string configuration of IceTop and IceCube
- 2013
-
Ingår i: Astroparticle physics. - : Elsevier BV. - 0927-6505 .- 1873-2852. ; 42, s. 15-32
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Tidskriftsartikel (refereegranskat)abstract
- The mass composition of high energy cosmic rays depends on their production, acceleration, and propagation. The study of cosmic ray composition can therefore reveal hints of the origin of these particles. At the South Pole, the IceCube Neutrino Observatory is capable of measuring two components of cosmic ray air showers in coincidence: the electromagnetic component at high altitude (2835 m) using the IceTop surface array, and the muonic component above ∼1 TeV using the IceCube array. This unique detector arrangement provides an opportunity for precision measurements of the cosmic ray energy spectrum and composition in the region of the knee and beyond. We present the results of a neural network analysis technique to study the cosmic ray composition and the energy spectrum from 1 PeV to 30 PeV using data recorded using the 40-string/40-station configuration of the IceCube Neutrino Observatory.
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| 14. |
- Abbasi, R., et al.
(författare)
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Searches for high-energy neutrino emission in the galaxy with the combined icecube-amanda detector
- 2013
-
Ingår i: Astrophysical Journal. - 0004-637X .- 1538-4357. ; 763:1, s. 33-
-
Tidskriftsartikel (refereegranskat)abstract
- We report on searches for neutrino sources at energies above 200 GeV in the Northern sky of the Galactic plane, using the data collected by the South Pole neutrino telescope, IceCube, and AMANDA. The Galactic region considered in this work includes the local arm toward the Cygnus region and our closest approach to the Perseus Arm. The searches are based on the data collected between 2007 and 2009. During this time AMANDA was an integrated part of IceCube, which was still under construction and operated with 22 strings (2007-2008) and 40 strings (2008-2009) of optical modules deployed in the ice. By combining the advantages of the larger IceCube detector with the lower energy threshold of the more compact AMANDA detector, we obtain an improved sensitivity at energies below ∼10 TeV with respect to previous searches. The analyses presented here are a scan for point sources within the Galactic plane, a search optimized for multiple and extended sources in the Cygnus region, which might be below the sensitivity of the point source scan, and studies of seven pre-selected neutrino source candidates. For one of them, Cygnus X-3, a time-dependent search for neutrino emission in coincidence with observed radio and X-ray flares has been performed. No evidence of a signal is found, and upper limits are reported for each of the searches. We investigate neutrino spectra proportional to E -2 and E -3 in order to cover the entire range of possible neutrino spectra. The steeply falling E -3 neutrino spectrum can also be used to approximate neutrino energy spectra with energy cutoffs below 50 TeV since these result in a similar energy distribution of events in the detector. For the region of the Galactic plane visible in the Northern sky, the 90% confidence level muon neutrino flux upper limits are in the range E 3 dN/dE ∼ 5.4-19.5 × 10-11 TeV2 cm-2 s-1 for point-like neutrino sources in the energy region [180.0 GeV-20.5 TeV]. These represent the most stringent upper limits for soft-spectra neutrino sources within the Galaxy reported to date.
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| 15. |
- Scott, P., et al.
(författare)
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Use of event-level neutrino telescope data in global fits for theories of new physics
- 2012
-
Ingår i: Journal of Cosmology and Astroparticle Physics. - : IOP Publishing. - 1475-7516. ; :11, s. 057-
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Tidskriftsartikel (refereegranskat)abstract
- We present a fast likelihood method for including event-level neutrino telescope data in parameter explorations of theories for new physics, and announce its public release as part of DarkSUSY 5.0.6. Our construction includes both angular and spectral information about neutrino events, as well as their total number. We also present a corresponding measure for simple model exclusion, which can be used for single models without reference to the rest of a parameter space. We perform a number of supersymmetric parameter scans with IceCube data to illustrate the utility of the method: example global fits and a signal recovery in the constrained minimal supersymmetric standard model (CMSSM), and a model exclusion exercise in a 7-parameter phenomenological version of the MSSM. The final IceCube detector con figuration will probe almost the entire focus-point region of the CMSSM, as well as a number of MSSM-7 models that will not otherwise be accessible to e. g. direct detection. Our method accurately recovers the mock signal, and provides tight constraints on model parameters and derived quantities. We show that the inclusion of spectral information significantly improves the accuracy of the recovery, providing motivation for its use in future IceCube analyses.
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| 16. |
- Aartsen, M. G., et al.
(författare)
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Search for Galactic PeV gamma rays with the IceCube Neutrino Observatory
- 2013
-
Ingår i: Physical Review D. - 1550-7998 .- 1550-2368. ; 87:6, s. 062002-
-
Tidskriftsartikel (refereegranskat)abstract
- Gamma-ray induced air showers are notable for their lack of muons, compared to hadronic showers. Hence, air shower arrays with large underground muon detectors can select a sample greatly enriched in photon showers by rejecting showers containing muons. IceCube is sensitive to muons with energies above similar to 500 GeV at the surface, which provides an efficient veto system for hadronic air showers with energies above 1 PeV. One year of data from the 40-string IceCube configuration was used to perform a search for point sources and a Galactic diffuse signal. No sources were found, resulting in a 90% C.L. upper limit on the ratio of gamma rays to cosmic rays of 1.2 x 10(-3) for the flux coming from the Galactic plane region (-80 degrees less than or similar to l less than or similar to -30 degrees; -10 degrees less than or similar to b less than or similar to 5 degrees) in the energy range 1.2-6.0 PeV. In the same energy range, point source fluxes with E-2 spectra have been excluded at a level of (E/TeV)(2)d Phi/dE similar to 10(-12)-10(-11) cm(-2) s(-1) TeV-1 depending on source declination. The complete IceCube detector will have a better sensitivity (due to the larger detector size), improved reconstruction, and vetoing techniques. Preliminary data from the nearly final IceCube detector configuration have been used to estimate the 5-yr sensitivity of the full detector. It is found to be more than an order of magnitude better, allowing the search for PeV extensions of known TeV gamma-ray emitters.
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| 17. |
- Abbasi, R., et al.
(författare)
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An improved method for measuring muon energy using the truncated mean of dE/dx
- 2013
-
Ingår i: Nuclear Instruments and Methods in Physics Research Section A. - : Elsevier BV. - 0168-9002 .- 1872-9576. ; 703, s. 190-198
-
Tidskriftsartikel (refereegranskat)abstract
- The measurement of muon energy is critical for many analyses in large Cherenkov detectors, particularly those that involve separating extraterrestrial neutrinos from the atmospheric neutrino background. Muon energy has traditionally been determined by measuring the specific energy loss (dE/dx) along the muon's path and relating the dE/dx to the muon energy. Because high-energy muons (Eμ>1TeV) lose energy randomly, the spread in dE/dx values is quite large, leading to a typical energy resolution of 0.29 in log10(Eμ) for a muon observed over a 1 km path length in the IceCube detector. In this paper, we present an improved method that uses a truncated mean and other techniques to determine the muon energy. The muon track is divided into separate segments with individual dE/dx values. The elimination of segments with the highest dE/dx results in an overall dE/dx that is more closely correlated to the muon energy. This method results in an energy resolution of 0.22 in log10(Eμ), which gives a 26% improvement. This technique is applicable to any large water or ice detector and potentially to large scintillator or liquid argon detectors.
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| 18. |
- Abbasi, R., et al.
(författare)
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Lateral distribution of muons in IceCube cosmic ray events
- 2013
-
Ingår i: Physical Review D. - 1550-7998 .- 1550-2368. ; 87:1, s. 012005-
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Tidskriftsartikel (refereegranskat)abstract
- In cosmic ray air showers, the muon lateral separation from the center of the shower is a measure of the transverse momentum that the muon parent acquired in the cosmic ray interaction. IceCube has observed cosmic ray interactions that produce muons laterally separated by up to 400 m from the shower core, a factor of 6 larger distance than previous measurements. These muons originate in high p(T) (> 2 GeV/c) interactions from the incident cosmic ray, or high-energy secondary interactions. The separation distribution shows a transition to a power law at large values, indicating the presence of a hard p(T) component that can be described by perturbative quantum chromodynamics. However, the rates and the zenith angle distributions of these events are not well reproduced with the cosmic ray models tested here, even those that include charm interactions. This discrepancy may be explained by a larger fraction of kaons and charmed particles than is currently incorporated in the simulations. DOI: 10.1103/PhysRevD.87.012005
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| 19. |
- Abbasi, R., et al.
(författare)
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Search for relativistic magnetic monopoles with IceCube
- 2013
-
Ingår i: Physical Review D. - 1550-7998 .- 1550-2368. ; 87:2, s. 022001-
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Tidskriftsartikel (refereegranskat)abstract
- We present the first results in the search for relativistic magnetic monopoles with the IceCube detector, a subsurface neutrino telescope located in the South Polar ice cap containing a volume of 1 km(3). This analysis searches data taken on the partially completed detector during 2007 when roughly 0.2 km(3) of ice was instrumented. The lack of candidate events leads to an upper limit on the flux of relativistic magnetic monopoles of Phi(90%C.L.) similar to 3 x 10(-18) cm(-2) sr(-1) s(-1) for beta >= 0.8. This is a factor of 4 improvement over the previous best experimental flux limits up to a Lorentz boost gamma below 10(7). This result is then interpreted for a wide range of mass and kinetic energy values.
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| 20. |
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| 21. |
- Abbasi, R., et al.
(författare)
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All-particle cosmic ray energy spectrum measured with 26 IceTop stations
- 2013
-
Ingår i: Astroparticle physics. - : Elsevier BV. - 0927-6505 .- 1873-2852. ; 44, s. 40-58
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Tidskriftsartikel (refereegranskat)abstract
- We report on a measurement of the cosmic ray energy spectrum with the IceTop air shower array, the surface component of the IceCube Neutrino Observatory at the South Pole. The data used in this analysis were taken between June and October, 2007, with 26 surface stations operational at that time, corresponding to about one third of the final array. The fiducial area used in this analysis was 0.122 km(2). The analysis investigated the energy spectrum from 1 to 100 PeV measured for three different zenith angle ranges between 0 degrees and 46 degrees. Because of the isotropy of cosmic rays in this energy range the spectra from all zenith angle intervals have to agree. The cosmic-ray energy spectrum was determined under different assumptions on the primary mass composition. Good agreement of spectra in the three zenith angle ranges was found for the assumption of pure proton and a simple two-component model. For zenith angles theta < 30 degrees, where the mass dependence is smallest, the knee in the cosmic ray energy spectrum was observed at about 4 PeV, with a spectral index above the knee of about -3.1. Moreover, an indication of a flattening of the spectrum above 22 PeV was observed.
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| 22. |
- Abbasi, R., et al.
(författare)
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An absence of neutrinos associated with cosmic-ray acceleration in gamma-ray bursts
- 2012
-
Ingår i: Nature. - : Springer Science and Business Media LLC. - 0028-0836 .- 1476-4687. ; 484:7394, s. 351-354
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Tidskriftsartikel (refereegranskat)abstract
- Very energetic astrophysical events are required to accelerate cosmic rays to above 10(18) electronvolts. GRBs (c-ray bursts) have been proposed as possible candidate sources(1-3). In the GRB 'fireball' model, cosmic-ray acceleration should be accompanied by neutrinos produced in the decay of charged pions created in interactions between the high-energy cosmic-ray protons and gamma-rays(4). Previous searches for such neutrinos found none, but the constraints were weak because the sensitivity was at best approximately equal to the predicted flux(5-7). Here we report an upper limit on the flux of energetic neutrinos associated with GRBs that is at least a factor of 3.7 below the predictions(4,8-10). This implies either that GRBs are not the only sources of cosmic rays with energies exceeding 10(18) electronvolts or that the efficiency of neutrino production is much lower than has been predicted.
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| 23. |
- Abbasi, R., et al.
(författare)
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Multiyear search for dark matter annihilations in the Sun with the AMANDA-II and IceCube detectors
- 2012
-
Ingår i: Physical Review D. - 1550-7998 .- 1550-2368. ; 85, s. 042002-
-
Tidskriftsartikel (refereegranskat)abstract
- A search for an excess of muon neutrinos from dark matter annihilations in the Sun has been performed with the AMANDA-II neutrino telescope using data collected in 812 days of live time between 2001 and 2006 and 149 days of live time collected with the AMANDA-II and the 40-string configuration of IceCube during 2008 and early 2009. No excess over the expected atmospheric neutrino background has been observed. We combine these results with the previously published IceCube limits obtained with data taken during 2007 to obtain a total live time of 1065 days. We provide an upper limit at 90% confidence level on the annihilation rate of captured neutralinos in the Sun, as well as the corresponding muon flux limit at the Earth, both as functions of the neutralino mass in the range 50-5000 GeV. We also derive a limit on the neutralino-proton spin-dependent and spin-independent cross section. The limits presented here improve the previous results obtained by the collaboration between a factor of 2 and 5, as well as extending the neutralino masses probed down to 50 GeV. The spin-dependent cross section limits are the most stringent so far for neutralino masses above 200 GeV, and well below direct search results in the mass range from 50 GeV to 5 TeV.
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| 24. |
- Abbasi, R., et al.
(författare)
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Search for ultrahigh-energy tau neutrinos with IceCube
- 2012
-
Ingår i: Physical Review D. - 1550-7998 .- 1550-2368. ; 86:2, s. 022005-
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Tidskriftsartikel (refereegranskat)abstract
- The first dedicated search for ultrahigh-energy (UHE) tau neutrinos of astrophysical origin was performed using the IceCube detector in its 22-string configuration with an instrumented volume of roughly 0: 25 km(3). The search also had sensitivity to UHE electron and muon neutrinos. After application of all selection criteria to approximately 200 live-days of data, we expect a background of 0.60 +/- 0.19(stat)(-0.58)(+0.56)(syst) events and observe three events, which after inspection, emerge as being compatible with background but are kept in the final sample. Therefore, we set an upper limit on neutrinos of all flavors from UHE astrophysical sources at 90% C.L. of E-v(2)Phi(90)(v(x)) < 16.3 x 10(-8) GeV cm(-2) sr(-1) s(-1) over an estimated primary neutrino energy range of 340 TeV to 200 PeV.
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| 25. |
- Mullins, Niamh, et al.
(författare)
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Dissecting the Shared Genetic Architecture of Suicide Attempt, Psychiatric Disorders, and Known Risk Factors
- 2022
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Ingår i: Biological Psychiatry. - : Elsevier. - 0006-3223 .- 1873-2402. ; 91:3, s. 313-327
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Tidskriftsartikel (refereegranskat)abstract
- BACKGROUND: Suicide is a leading cause of death worldwide, and nonfatal suicide attempts, which occur far more frequently, are a major source of disability and social and economic burden. Both have substantial genetic etiology, which is partially shared and partially distinct from that of related psychiatric disorders.METHODS: We conducted a genome-wide association study (GWAS) of 29,782 suicide attempt (SA) cases and 519,961 controls in the International Suicide Genetics Consortium (ISGC). The GWAS of SA was conditioned on psychiatric disorders using GWAS summary statistics via multitrait-based conditional and joint analysis, to remove genetic effects on SA mediated by psychiatric disorders. We investigated the shared and divergent genetic architectures of SA, psychiatric disorders, and other known risk factors.RESULTS: Two loci reached genome-wide significance for SA: the major histocompatibility complex and an intergenic locus on chromosome 7, the latter of which remained associated with SA after conditioning on psychiatric disorders and replicated in an independent cohort from the Million Veteran Program. This locus has been implicated in risk-taking behavior, smoking, and insomnia. SA showed strong genetic correlation with psychiatric disorders, particularly major depression, and also with smoking, pain, risk-taking behavior, sleep disturbances, lower educational attainment, reproductive traits, lower socioeconomic status, and poorer general health. After conditioning on psychiatric disorders, the genetic correlations between SA and psychiatric disorders decreased, whereas those with nonpsychiatric traits remained largely unchanged.CONCLUSIONS: Our results identify a risk locus that contributes more strongly to SA than other phenotypes and suggest a shared underlying biology between SA and known risk factors that is not mediated by psychiatric disorders.
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| 26. |
- Clark, Andrew G., et al.
(författare)
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Evolution of genes and genomes on the Drosophila phylogeny
- 2007
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Ingår i: Nature. - : Springer Science and Business Media LLC. - 0028-0836 .- 1476-4687. ; 450:7167, s. 203-218
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Tidskriftsartikel (refereegranskat)abstract
- Comparative analysis of multiple genomes in a phylogenetic framework dramatically improves the precision and sensitivity of evolutionary inference, producing more robust results than single-genome analyses can provide. The genomes of 12 Drosophila species, ten of which are presented here for the first time (sechellia, simulans, yakuba, erecta, ananassae, persimilis, willistoni, mojavensis, virilis and grimshawi), illustrate how rates and patterns of sequence divergence across taxa can illuminate evolutionary processes on a genomic scale. These genome sequences augment the formidable genetic tools that have made Drosophila melanogaster a pre-eminent model for animal genetics, and will further catalyse fundamental research on mechanisms of development, cell biology, genetics, disease, neurobiology, behaviour, physiology and evolution. Despite remarkable similarities among these Drosophila species, we identified many putatively non-neutral changes in protein-coding genes, non-coding RNA genes, and cis-regulatory regions. These may prove to underlie differences in the ecology and behaviour of these diverse species.
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| 27. |
- Docherty, Anna R, et al.
(författare)
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GWAS Meta-Analysis of Suicide Attempt: Identification of 12 Genome-Wide Significant Loci and Implication of Genetic Risks for Specific Health Factors.
- 2023
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Ingår i: The American journal of psychiatry. - : American Psychiatric Association Publishing. - 1535-7228 .- 0002-953X. ; 180:10, s. 723-738
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Tidskriftsartikel (refereegranskat)abstract
- Suicidal behavior is heritable and is a major cause of death worldwide. Two large-scale genome-wide association studies (GWASs) recently discovered and cross-validated genome-wide significant (GWS) loci for suicide attempt (SA). The present study leveraged the genetic cohorts from both studies to conduct the largest GWAS meta-analysis of SA to date. Multi-ancestry and admixture-specific meta-analyses were conducted within groups of significant African, East Asian, and European ancestry admixtures.This study comprised 22 cohorts, including 43,871 SA cases and 915,025 ancestry-matched controls. Analytical methods across multi-ancestry and individual ancestry admixtures included inverse variance-weighted fixed-effects meta-analyses, followed by gene, gene-set, tissue-set, and drug-target enrichment, as well as summary-data-based Mendelian randomization with brain expression quantitative trait loci data, phenome-wide genetic correlation, and genetic causal proportion analyses.Multi-ancestry and European ancestry admixture GWAS meta-analyses identified 12 risk loci at p values <5×10-8. These loci were mostly intergenic and implicated DRD2, SLC6A9, FURIN, NLGN1, SOX5, PDE4B, and CACNG2. The multi-ancestry SNP-based heritability estimate of SA was 5.7% on the liability scale (SE=0.003, p=5.7×10-80). Significant brain tissue gene expression and drug set enrichment were observed. There was shared genetic variation of SA with attention deficit hyperactivity disorder, smoking, and risk tolerance after conditioning SA on both major depressive disorder and posttraumatic stress disorder. Genetic causal proportion analyses implicated shared genetic risk for specific health factors.This multi-ancestry analysis of suicide attempt identified several loci contributing to risk and establishes significant shared genetic covariation with clinical phenotypes. These findings provide insight into genetic factors associated with suicide attempt across ancestry admixture populations, in veteran and civilian populations, and in attempt versus death.
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| 28. |
- Zannad, F., et al.
(författare)
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Clinical outcome endpoints in heart failure trials: a European Society of Cardiology Heart Failure Association consensus document
- 2013
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Ingår i: European Journal of Heart Failure. - : Wiley. - 1388-9842 .- 1879-0844. ; 15:10, s. 1082-1094
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Tidskriftsartikel (refereegranskat)abstract
- Endpoint selection is a critically important step in clinical trial design. It poses major challenges for investigators, regulators, and study sponsors, and it also has important clinical and practical implications for physicians and patients. Clinical outcomes of interest in heart failure trials include all-cause mortality, cause-specific mortality, relevant non-fatal morbidity (e.g. all-cause and cause-specific hospitalization), composites capturing both morbidity and mortality, safety, symptoms, functional capacity, and patient-reported outcomes. Each of these endpoints has strengths and weaknesses that create controversies regarding which is most appropriate in terms of clinical importance, sensitivity, reliability, and consistency. Not surprisingly, a lack of consensus exists within the scientific community regarding the optimal endpoint(s) for both acute and chronic heart failure trials. In an effort to address these issues, the Heart Failure Association of the European Society of Cardiology (HFA-ESC) convened a group of expert heart failure clinical investigators, biostatisticians, regulators, and pharmaceutical industry scientists (Nice, France, 12-13 February 2012) to evaluate the challenges of defining heart failure endpoints in clinical trials and to develop a consensus framework. This report summarizes the group's recommendations for achieving common views on heart failure endpoints in clinical trials.
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| 29. |
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| 30. |
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| 31. |
- Wasserman, D, et al.
(författare)
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Compulsory admissions of patients with mental disorders: State of the art on ethical and legislative aspects in 40 European countries
- 2020
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Ingår i: European psychiatry : the journal of the Association of European Psychiatrists. - : Royal College of Psychiatrists. - 1778-3585. ; 63:1, s. e82-
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Tidskriftsartikel (refereegranskat)abstract
- Background.Compulsory admission procedures of patients with mental disorders vary between countries in Europe. The Ethics Committee of the European Psychiatric Association (EPA) launched a survey on involuntary admission procedures of patients with mental disorders in 40 countries to gather information from all National Psychiatric Associations that are members of the EPA to develop recommendations for improving involuntary admission processes and promote voluntary care.Methods.The survey focused on legislation of involuntary admissions and key actors involved in the admission procedure as well as most common reasons for involuntary admissions.Results.We analyzed the survey categorical data in themes, which highlight that both medical and legal actors are involved in involuntary admission procedures.Conclusions.We conclude that legal reasons for compulsory admission should be reworded in order to remove stigmatization of the patient, that raising awareness about involuntary admission procedures and patient rights with both patients and family advocacy groups is paramount, that communication about procedures should be widely available in lay-language for the general population, and that training sessions and guidance should be available for legal and medical practitioners. Finally, people working in the field need to be constantly aware about the ethical challenges surrounding compulsory admissions.
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| 32. |
- Yusuf, D, et al.
(författare)
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The transcription factor encyclopedia
- 2012
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Ingår i: Genome biology. - : Springer Science and Business Media LLC. - 1474-760X .- 1465-6906. ; 13:3, s. R24-
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Tidskriftsartikel (refereegranskat)
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| 33. |
- Grapotte, M, et al.
(författare)
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Discovery of widespread transcription initiation at microsatellites predictable by sequence-based deep neural network
- 2021
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Ingår i: Nature communications. - : Springer Science and Business Media LLC. - 2041-1723. ; 12:1, s. 3297-
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Tidskriftsartikel (refereegranskat)abstract
- Using the Cap Analysis of Gene Expression (CAGE) technology, the FANTOM5 consortium provided one of the most comprehensive maps of transcription start sites (TSSs) in several species. Strikingly, ~72% of them could not be assigned to a specific gene and initiate at unconventional regions, outside promoters or enhancers. Here, we probe these unassigned TSSs and show that, in all species studied, a significant fraction of CAGE peaks initiate at microsatellites, also called short tandem repeats (STRs). To confirm this transcription, we develop Cap Trap RNA-seq, a technology which combines cap trapping and long read MinION sequencing. We train sequence-based deep learning models able to predict CAGE signal at STRs with high accuracy. These models unveil the importance of STR surrounding sequences not only to distinguish STR classes, but also to predict the level of transcription initiation. Importantly, genetic variants linked to human diseases are preferentially found at STRs with high transcription initiation level, supporting the biological and clinical relevance of transcription initiation at STRs. Together, our results extend the repertoire of non-coding transcription associated with DNA tandem repeats and complexify STR polymorphism.
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| 34. |
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| 35. |
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| 36. |
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| 37. |
- Kelleher, I, et al.
(författare)
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Clinicopathological significance of psychotic experiences in non-psychotic young people: evidence from four population-based studies
- 2012
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Ingår i: The British journal of psychiatry : the journal of mental science. - : Royal College of Psychiatrists. - 1472-1465. ; 201:1, s. 26-32
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Tidskriftsartikel (refereegranskat)abstract
- Epidemiological research has shown that hallucinations and delusions, the classic symptoms of psychosis, are far more prevalent in the population than actual psychotic disorder. These symptoms are especially prevalent in childhood and adolescence. Longitudinal research has demonstrated that psychotic symptoms in adolescence increase the risk of psychotic disorder in adulthood. There has been a lack of research, however, on the immediate clinicopathological significance of psychotic symptoms in adolescence.AimsTo investigate the relationship between psychotic symptoms and non-psychotic psychopathology in community samples of adolescents in terms of prevalence, co-occurring disorders, comorbid (multiple) psychopathology and variation across early v. middle adolescence.MethodData from four population studies were used: two early adolescence studies (ages 11–13 years) and two mid-adolescence studies (ages 13–16 years). Studies 1 and 2 involved school-based surveys of 2243 children aged 11–16 years for psychotic symptoms and for emotional and behavioural symptoms of psychopathology. Studies 3 and 4 involved in-depth diagnostic interview assessments of psychotic symptoms and lifetime psychiatric disorders in community samples of 423 children aged 11–15 years.ResultsYounger adolescents had a higher prevalence (21–23%) of psychotic symptoms than older adolescents (7%). In both age groups the majority of adolescents who reported psychotic symptoms had at least one diagnosable non-psychotic psychiatric disorder, although associations with psychopathology increased with age: nearly 80% of the mid-adolescence sample who reported psychotic symptoms had at least one diagnosis, compared with 57% of the early adolescence sample. Adolescents who reported psychotic symptoms were at particularly high risk of having multiple co-occurring diagnoses.ConclusionsPsychotic symptoms are important risk markers for a wide range of non-psychotic psychopathological disorders, in particular for severe psychopathology characterised by multiple co-occurring diagnoses. These symptoms should be carefully assessed in all patients.
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| 38. |
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| 39. |
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| 40. |
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| 41. |
- Couldry, N., et al.
(författare)
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Media, communication and the struggle for social progress
- 2018
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Ingår i: Global Media and Communication. - : Sage Publications. - 1742-7665 .- 1742-7673. ; 14:2, s. 173-191
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Tidskriftsartikel (refereegranskat)abstract
- This article discusses the role of media and communications in contributing to social progress, as elaborated in a landmark international project – the International Panel on Social Progress. First, it analyses how media and digital platforms have contributed to global inequality by examining media access and infrastructure across world regions. Second, it looks at media governance and the different mechanisms of corporatized control over media platforms, algorithms and content. Third, the article examines how the democratization of media is a key element in the struggle for social justice. It argues that effective media access – in terms of distribution of media resources, even relations between spaces of connection and the design and operation of spaces that foster dialogue, free speech and respectful cultural exchange – is a core component of social progress.
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| 42. |
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| 43. |
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| 44. |
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| 45. |
- Raman, Sudha R., et al.
(författare)
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Leveraging electronic health records for clinical research
- 2018
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Ingår i: American Heart Journal. - : Elsevier. - 0002-8703 .- 1097-6744. ; 202, s. 13-19
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Tidskriftsartikel (refereegranskat)abstract
- Electronic health records (EHRs) can be a major tool in the quest to decrease costs and timelines of clinical trial research, generate better evidence for clinical decision making, and advance health care. Over the past decade, EHRs have increasingly offered opportunities to speed up, streamline, and enhance clinical research. EHRs offer a wide range of possible uses in clinical trials, including assisting with prestudy feasibility assessment, patient recruitment, and data capture in care delivery. To fully appreciate these opportunities, health care stakeholders must come together to face critical challenges in leveraging EHR data, including data quality/completeness, information security, stakeholder engagement, and increasing the scale of research infrastructure and related governance. Leaders from academia, government, industry, and professional societies representing patient, provider, researcher, industry, and regulator perspectives convened the Leveraging EHR for Clinical Research Now! Think Tank in Washington, DC (February 18-19, 2016), to identify barriers to using EHRs in clinical research and to generate potential solutions. Think tank members identified a broad range of issues surrounding the use of EHRs in research and proposed a variety of solutions. Recognizing the challenges, the participants identified the urgent need to look more deeply at previous efforts to use these data, share lessons learned, and develop a multidisciplinary agenda for best practices for using EHRs in clinical research. We report the proceedings from this think tank meeting in the following paper. (C) 2018 Elsevier Inc. All rights reserved.
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| 46. |
- Vilarino-Gueell, Carles, et al.
(författare)
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VPS35 Mutations in Parkinson Disease
- 2011
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Ingår i: American Journal of Human Genetics. - : Elsevier BV. - 0002-9297. ; 89:1, s. 162-167
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Tidskriftsartikel (refereegranskat)abstract
- The identification of genetic causes for Mendelian disorders has been based on the collection of multi-incident families, linkage analysis, and sequencing of genes in candidate intervals. This study describes the application of next-generation sequencing technologies to a Swiss kindred presenting with autosomal-dominant, late-onset Parkinson disease (PD). The family has tremor-predominant dopa-responsive parkinsonism with a mean onset of 50.6 +/- 7.3 years. Exome analysis suggests that an aspartic-acid-to-asparagine mutation within vacuolar protein sorting 35 (VPS35 c.1858G>A; p.Asp620Asn) is the genetic determinant of disease. VPS35 is a central component of the retromer cargo-recognition complex, is critical for endosome-trans-golgi trafficking and membrane-protein recycling, and is evolutionarily highly conserved. VPS35 c.1858G>A was found in all affected members of the Swiss kindred and in three more families and one patient with sporadic PD, but it was not observed in 3,309 controls. Further sequencing of familial affected probands revealed only one other missense variant, VPS35 c.946C>T; (p.Pro316Ser), in a pedigree with one unaffected and two affected carriers, and thus the pathogenicity of this mutation remains uncertain. Retromer-mediated sorting and transport is best characterized for acid hydrolase receptors. However, the complex has many types of cargo and is involved in a diverse array of biologic pathways from developmental Wnt signaling to lysosome biogenesis. Our study implicates disruption of VPS35 and retromer-mediated trans-membrane protein sorting, rescue, and recycling in the neurodegenerative process leading to PD.
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| 47. |
- Winkler, P, et al.
(författare)
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Value of schizophrenia treatment II: Decision modelling for developing early detection and early intervention services in the Czech Republic
- 2018
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Ingår i: European psychiatry : the journal of the Association of European Psychiatrists. - : Cambridge University Press (CUP). - 1778-3585. ; 53, s. 116-122
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Tidskriftsartikel (refereegranskat)abstract
- Background:Positive findings on early detection and early intervention services have been consistently reported from many different countries. The aim of this study, conducted within the European Brain Council project “The Value of Treatment”, was to estimate costs and the potential cost- savings associated with adopting these services within the context of the Czech mental health care reform.Methods:Czech epidemiological data, probabilities derived from meta-analyses, and data on costs of mental health services in the Czech Republic were used to populate a decision analytical model. From the health care and societal perspectives, costs associated with health care services and productivity lost were taken into account. One-way sensitivity analyses were conducted to explore the uncertainty around the key parameters.Results:It was estimated that annual costs associated with care as usual for people with the first episode of psychosis were as high as 46 million Euro in the Czech Republic 2016. These annual costs could be reduced by 25% if ED services were adopted, 33% if EI services were adopted, and 40% if both, ED and EI services, were adopted in the country. Cost-savings would be generated due to decreased hospitalisations and better employment outcomes in people with psychoses.Conclusions:Adopting early detection and early intervention services in mental health systems based on psychiatric hospitals and with limited access to acute and community care could generate considerable cost- savings. Although the results of this modelling study needs to be taken with caution, early detection and early intervention services are recommended for multi-centre pilot testing accompanied by full economic evaluation in the region of Central and Eastern Europe.
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